Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
TP53

Cell type

Cell type Class
Others
Cell type
CNE-2
NA
NA

Attributes by original data submitter

Sample

source_name
CNE2
cell line
CNE2
cell type
Nasopharyngeal carcinoma (NPC)
treatment
Yes
chip antibody
p53 (Santa Cruz Technology,sc-126)
genotype
NPC cell with p53 mutation (p53R280T)
disease state
NPC

Sequenced DNA Library

library_name
GSM5945250
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For RNAseq, cells samples were lysed in Trizol reagent (Invitrogen, 10296010).ChIP-seq, cells were fixed, quenched, sonicated to ~250 bp in 1% SDS lysis buffer, and incubated with Protein A/G Dynabeads and 5 µg of the indicated antibody. 2% pre-cleared chromatin prior to primary antibody addition was kept as input DNA. After wash, treatment with RNAse A and Proteinase K, DNA was eluted and purified with Qiagen's PCR purification kit (28106). For RNASeq, library construction was performed using PE150 high-throughput sequencing. For ChIPSeq, library construction was performed using PE75 high-throughput sequencing.

Sequencing Platform

instrument_model
HiSeq X Ten

hg38

Number of total reads
26261436
Reads aligned (%)
71.1
Duplicates removed (%)
37.9
Number of peaks
687 (qval < 1E-05)

hg19

Number of total reads
26261436
Reads aligned (%)
70.5
Duplicates removed (%)
38.3
Number of peaks
279 (qval < 1E-05)

Base call quality data from DBCLS SRA